Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008000.1 Hibiscus syriacus cultivar Beakdansim tig00110457_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1646480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1472026 original size:19 final size:19
Alignment explanation
Indices: 1472004--1472059 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
1471994 ATTACAATTG
1472004 TTAAATGATTTAGGGTTTT
1 TTAAATGATTTAGGGTTTT
**
1472023 TTAAATTTTATTA-GGTTTT
1 TTAAATGAT-TTAGGGTTTT
* *
1472042 TTTAATGGTTTAAGGGTT
1 TTAAATGATTT-AGGGTT
1472060 AGATGAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.07
19 20 0.69
20 7 0.24
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (19 bp):
TTAAATGATTTAGGGTTTT
Found at i:1482199 original size:21 final size:21
Alignment explanation
Indices: 1482170--1482218 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1482160 GAGAGGTTGT
*
1482170 AATTCCTATTTTCTCATAGTG
1 AATTTCTATTTTCTCATAGTG
1482191 AATTTCTATTTTCTCATAGTG
1 AATTTCTATTTTCTCATAGTG
1482212 AATTTCT
1 AATTTCT
1482219 TCTACCGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.51
Consensus pattern (21 bp):
AATTTCTATTTTCTCATAGTG
Found at i:1484142 original size:2 final size:2
Alignment explanation
Indices: 1484135--1484172 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1484125 TAAATAAATC
1484135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1484173 CTTGGATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1485442 original size:27 final size:28
Alignment explanation
Indices: 1485404--1485481 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 28
1485394 TTTTTAAGAA
*
1485404 AAAAAACTCAAAATTTTATAAATCTAC-
1 AAAAAACTCAAAATTTTATAAAACTACG
1485431 AAAAAACTCAAAA-TTTATAAAACTACG
1 AAAAAACTCAAAATTTTATAAAACTACG
*
1485458 AAAAATCTCAAAATCTTT-TAAAAC
1 AAAAAACTCAAAAT-TTTATAAAAC
1485482 CTTAATTTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
26 12 0.26
27 25 0.54
28 6 0.13
29 3 0.07
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.27
Consensus pattern (28 bp):
AAAAAACTCAAAATTTTATAAAACTACG
Found at i:1486421 original size:27 final size:27
Alignment explanation
Indices: 1486390--1486466 Score: 136
Period size: 27 Copynumber: 2.9 Consensus size: 27
1486380 CAGGGCAGAG
1486390 ATAAGGGGCAGGGGATTTCTATTCGAA
1 ATAAGGGGCAGGGGATTTCTATTCGAA
1486417 ATAAGGGGCAGGGGATTTCTATTCGAA
1 ATAAGGGGCAGGGGATTTCTATTCGAA
* *
1486444 ATAAGGGGCAGGAGACTTCTATT
1 ATAAGGGGCAGGGGATTTCTATT
1486467 ACAGTTTTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (27 bp):
ATAAGGGGCAGGGGATTTCTATTCGAA
Found at i:1490154 original size:7 final size:7
Alignment explanation
Indices: 1490144--1490178 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
1490134 TAAAAAATAA
1490144 AAATTAT
1 AAATTAT
1490151 AAATTAT
1 AAATTAT
1490158 AAATTAT
1 AAATTAT
1490165 AAATAATAT
1 AAAT--TAT
1490174 AAATT
1 AAATT
1490179 TATATCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 19 0.73
9 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTAT
Found at i:1490154 original size:23 final size:23
Alignment explanation
Indices: 1490121--1490177 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
1490111 ATTTTTAAAG
1490121 AAATAA-A-AAATAATAAAAAAT
1 AAATAATATAAATAATAAAAAAT
* **
1490142 AAA-AATTATAAATTATAAATTAT
1 AAATAA-TATAAATAATAAAAAAT
1490165 AAATAATATAAAT
1 AAATAATATAAAT
1490178 TTATATCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.07
21 3 0.10
22 1 0.03
23 21 0.72
24 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATAATATAAATAATAAAAAAT
Found at i:1490159 original size:16 final size:16
Alignment explanation
Indices: 1490126--1490178 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
1490116 TAAAGAAATA
* *
1490126 AAAAATAATAAAAAAT
1 AAAAATTATAAATAAT
1490142 AAAAATTATAAAT--T
1 AAAAATTATAAATAAT
*
1490156 ATAAATTATAAATAAT
1 AAAAATTATAAATAAT
*
1490172 ATAAATT
1 AAAAATT
1490179 TATATCAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 13 0.41
16 19 0.59
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAATTATAAATAAT
Found at i:1490350 original size:13 final size:14
Alignment explanation
Indices: 1490327--1490356 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1490317 TTTGATTAAT
1490327 TAACATGTTAAATA
1 TAACATGTTAAATA
1490341 TAAC-TGTTAAATA
1 TAACATGTTAAATA
1490354 TAA
1 TAA
1490357 TGTGTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
TAACATGTTAAATA
Found at i:1492552 original size:2 final size:2
Alignment explanation
Indices: 1492545--1492682 Score: 118
Period size: 2 Copynumber: 72.5 Consensus size: 2
1492535 AACAATTTTA
*
1492545 AT AT AT AT -T A- AT AT AT -T AA AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1492583 AA AT AT ACT -T AT AT -T AT A- AGT TT AT AT AT A- AT AT TT AT AT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
*
1492623 A- AGT AT AC AT -T AT ACT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
1492664 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1492683 AAAGTATACA
Statistics
Matches: 111, Mismatches: 10, Indels: 30
0.74 0.07 0.20
Matches are distributed among these distances:
1 11 0.10
2 97 0.87
3 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1492569 original size:21 final size:23
Alignment explanation
Indices: 1492545--1492682 Score: 75
Period size: 21 Copynumber: 6.3 Consensus size: 23
1492535 AACAATTTTA
1492545 ATATATATTAATAT-AT-TAAAT
1 ATATATATTAATATAATATAAAT
1492566 ATATATA-T-ATATAATATAAAT
1 ATATATATTAATATAATATAAAT
* * *
1492587 ATACTTATATT-ATA-AGTTTATAT
1 ATA--TATATTAATATAATATAAAT
* *
1492610 ATA-ATATTTATATAAGTATACAT
1 ATATATATTAATATAA-TATAAAT
* *
1492633 -TATA-CTT-ATAT-ATATATAT
1 ATATATATTAATATAATATAAAT
*
1492652 ATATATA-TATATATATATATATAT
1 ATATATATTA-ATATA-ATATAAAT
1492676 ATATATA
1 ATATATA
1492683 AAAGTATACA
Statistics
Matches: 93, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
19 10 0.11
20 14 0.15
21 22 0.24
22 9 0.10
23 19 0.20
24 19 0.20
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATATATTAATATAATATAAAT
Found at i:1492595 original size:17 final size:16
Alignment explanation
Indices: 1492549--1492684 Score: 63
Period size: 15 Copynumber: 8.4 Consensus size: 16
1492539 ATTTTAATAT
*
1492549 ATATTAATATATTA-A
1 ATATAAATATATTATA
*
1492564 ATATATATATA-TATA
1 ATATAAATATATTATA
1492579 ATATAAATATACTTATA
1 ATATAAATATA-TTATA
* *
1492596 TTAT-AA-GT-TTAT-
1 ATATAAATATATTATA
*
1492608 ATAT-AATATTTATATA
1 ATATAAATATAT-TATA
*
1492624 AGTATACATTATACTTAT-
1 A-TATA-AATATA-TTATA
*
1492642 ATATATATATATATATA
1 ATATAAATATAT-TATA
*
1492659 TATATATATATATATATA
1 -ATATAAATATAT-TATA
1492677 TATATAAA
1 -ATATAAA
1492685 AGTATACATT
Statistics
Matches: 95, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
12 5 0.05
13 5 0.05
14 3 0.03
15 25 0.26
16 10 0.11
17 14 0.15
18 25 0.26
19 7 0.07
20 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (16 bp):
ATATAAATATATTATA
Found at i:1492885 original size:20 final size:20
Alignment explanation
Indices: 1492862--1492924 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
1492852 TATATATATA
1492862 TATATATATATTAGTATACT
1 TATATATATATTAGTATACT
*
1492882 TATAAGTATACATTA-TATA-T
1 TAT-A-TATATATTAGTATACT
* *
1492902 TATACAT-TATAAGTATACAT
1 TATATATATATTAGTATAC-T
1492922 TAT
1 TAT
1492925 GCTTATAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 3 0.09
18 6 0.18
19 1 0.03
20 11 0.32
21 5 0.15
22 8 0.24
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATATATATTAGTATACT
Found at i:1492911 original size:27 final size:29
Alignment explanation
Indices: 1492866--1492924 Score: 95
Period size: 27 Copynumber: 2.1 Consensus size: 29
1492856 TATATATATA
*
1492866 TATATATTAGTATACTTATAAGTATACAT
1 TATATATTAGTACACTTATAAGTATACAT
1492895 TATATATTA-TACA-TTATAAGTATACAT
1 TATATATTAGTACACTTATAAGTATACAT
1492922 TAT
1 TAT
1492925 GCTTATAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 17 0.59
28 3 0.10
29 9 0.31
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (29 bp):
TATATATTAGTACACTTATAAGTATACAT
Found at i:1492920 original size:13 final size:13
Alignment explanation
Indices: 1492874--1492924 Score: 77
Period size: 13 Copynumber: 3.9 Consensus size: 13
1492864 TATATATATT
1492874 AGTATAC-TTATA
1 AGTATACATTATA
1492886 AGTATACATTATA
1 AGTATACATTATA
*
1492899 TATTATACATTATA
1 -AGTATACATTATA
1492913 AGTATACATTAT
1 AGTATACATTAT
1492925 GCTTATAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
12 7 0.20
13 16 0.46
14 12 0.34
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (13 bp):
AGTATACATTATA
Found at i:1493384 original size:102 final size:102
Alignment explanation
Indices: 1493112--1493451 Score: 407
Period size: 102 Copynumber: 3.3 Consensus size: 102
1493102 ATTTATGTGG
* * * *
1493112 TTTCGATCAAAACACAAATCCTAACACATGTTCTTCATCTATTCATCCCTAAAAAG-CTAATTCG
1 TTTCAATCAAAACACAAACCCTAACCCCTGTTCTTCATCTATTCATCCCTAAAAAGTCT-ATTCG
* * *
1493176 ATCCAAAATAAATACAAATATTTCTTCC--TTCTGTGTT
65 ATCCAAAATAAACACAAATATTCCTTCCATTTCTAT-TT
* * * ** * * * * *
1493213 TTTTAATTAAAACATAAACCCTAACCCCTACTCTTCATCGATTCTTCCTTTAAAAGTCCATTCGA
1 TTTCAATCAAAACACAAACCCTAACCCCTGTTCTTCATCTATTCATCCCTAAAAAGTCTATTCGA
1493278 TCCAAAATAAACACAAATATTCCTTCCATTTCTATTT
66 TCCAAAATAAACACAAATATTCCTTCCATTTCTATTT
* * **
1493315 TTCCGATCAAAACACAAATTCTAACCCCTGTTCTTCATCTATTCATCCCTAAAAAGTCTATTCGA
1 TTTCAATCAAAACACAAACCCTAACCCCTGTTCTTCATCTATTCATCCCTAAAAAGTCTATTCGA
* *
1493380 TCCAAAATAAACACAAATCTTCCTTTCATTTCTATTT
66 TCCAAAATAAACACAAATATTCCTTCCATTTCTATTT
* * *
1493417 TTTCAATCAAAACACAAACTCTAACTCGTGTTCTT
1 TTTCAATCAAAACACAAACCCTAACCCCTGTTCTT
1493452 GACTGTTGAT
Statistics
Matches: 198, Mismatches: 38, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
101 74 0.37
102 119 0.60
103 5 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (102 bp):
TTTCAATCAAAACACAAACCCTAACCCCTGTTCTTCATCTATTCATCCCTAAAAAGTCTATTCGA
TCCAAAATAAACACAAATATTCCTTCCATTTCTATTT
Found at i:1493778 original size:5 final size:5
Alignment explanation
Indices: 1493765--1493915 Score: 55
Period size: 5 Copynumber: 29.8 Consensus size: 5
1493755 AAAGAGGTTT
* * * * * *
1493765 TTTTA TTTTC TTTT- TTATA TTTTG TTTTA TATTA TATT- TTTTA -TTCA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* ** *
1493812 TTTTTA TTTTA TTTT- TATTA TGGTA TTTTTA TTTTA TATT- TTTTA -TTTA
1 -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
* * *
1493861 TTCATA TTTTGGT TTTTA TTCTGTT TTTTA -TTTA TTTTAA TTTTA TTGTTA
1 TT-TTA TTTT--A TTTTA TT-T-TA TTTTA TTTTA TTTT-A TTTTA TT-TTA
1493912 TTTT
1 TTTT
1493916 TTATGCTGAT
Statistics
Matches: 108, Mismatches: 22, Indels: 32
0.67 0.14 0.20
Matches are distributed among these distances:
4 23 0.21
5 56 0.52
6 22 0.20
7 7 0.06
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:1493780 original size:12 final size:12
Alignment explanation
Indices: 1493763--1493952 Score: 72
Period size: 12 Copynumber: 15.2 Consensus size: 12
1493753 CCAAAGAGGT
*
1493763 TTTTTTATTTTC
1 TTTTTTATTTTA
1493775 TTTTTTATATTT-
1 TTTTTTAT-TTTA
*
1493787 TGTTTTATATTATA
1 T-TTTT-TATTTTA
*
1493801 TTTTTTA-TTCA
1 TTTTTTATTTTA
1493812 -TTTTTATTTTA
1 TTTTTTATTTTA
1493823 -TTTTTATTATGGTA
1 TTTTTTATT-T--TA
1493837 -TTTTTATTTTA
1 TTTTTTATTTTA
1493848 TATTTTT-TATTTA
1 T-TTTTTAT-TTTA
** *
1493861 -TTCATATTTTG
1 TTTTTTATTTTA
* * *
1493872 GTTTTTATTCTG
1 TTTTTTATTTTA
*
1493884 TTTTTTATTTATT
1 TTTTTTATTT-TA
1493897 TTAATTTTATTGTTA
1 TT--TTTTATT-TTA
*
1493912 TTTTTTATGCTGATA
1 TTTTTTAT--T-TTA
*
1493927 TTTTATT-TTTTG
1 TTTT-TTATTTTA
1493939 TTTTTTATTTTA
1 TTTTTTATTTTA
1493951 TT
1 TT
1493953 ATTCGTTCTA
Statistics
Matches: 139, Mismatches: 18, Indels: 42
0.70 0.09 0.21
Matches are distributed among these distances:
10 6 0.04
11 23 0.17
12 41 0.29
13 33 0.24
14 14 0.10
15 19 0.14
16 3 0.02
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:1493792 original size:24 final size:27
Alignment explanation
Indices: 1493766--1493919 Score: 95
Period size: 26 Copynumber: 5.6 Consensus size: 27
1493756 AAGAGGTTTT
*
1493766 TTTATTTTCTTTTTTA-T-ATTTTGT-T
1 TTTATTTTATTTTTTATTCATTTT-TAT
*
1493791 TTATATTATATTTTTTATTCATTTTTAT
1 TT-TATTTTATTTTTTATTCATTTTTAT
* * **
1493819 TTTATTTT-TATTATGGT-ATTTTTAT
1 TTTATTTTATTTTTTATTCATTTTTAT
*
1493844 TTTATATTT-TTTATTTATTCATATTTTGGTT
1 TTTAT-TTTATTT-TTTATTCAT-TTTT--AT
* * * *
1493875 TTTATTCTGTTTTTTATTTATTTTAAT
1 TTTATTTTATTTTTTATTCATTTTTAT
1493902 TTTATTGTTATTTTTTAT
1 TTTATT-TTATTTTTTAT
1493920 GCTGATATTT
Statistics
Matches: 99, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
25 15 0.15
26 22 0.22
27 17 0.17
28 19 0.19
29 7 0.07
30 10 0.10
31 9 0.09
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTATTTTATTTTTTATTCATTTTTAT
Found at i:1493841 original size:35 final size:35
Alignment explanation
Indices: 1493777--1493870 Score: 92
Period size: 32 Copynumber: 2.8 Consensus size: 35
1493767 TTATTTTCTT
*
1493777 TTTTATATTTTGTTTTATATTATATTTTTTATTCA
1 TTTTATATTTTATTTTATATTATATTTTTTATTCA
** *
1493812 TTTT-TATTTTATTTT-TATTATGGTATTT-TT-A
1 TTTTATATTTTATTTTATATTATATTTTTTATTCA
1493843 TTTTATATTTT-TTATT-TATTCATATTTT
1 TTTTATATTTTATT-TTATATT-ATATTTT
1493871 GGTTTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
31 7 0.14
32 14 0.29
33 14 0.29
34 10 0.20
35 4 0.08
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.73
Consensus pattern (35 bp):
TTTTATATTTTATTTTATATTATATTTTTTATTCA
Found at i:1493849 original size:49 final size:48
Alignment explanation
Indices: 1493776--1493893 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 48
1493766 TTTATTTTCT
* * **
1493776 TTTTTA-TATTTTGTTTTATATTATATTTTTTATTCATTTTTATTTT-A
1 TTTTTATTATGTT-TTTTATTTTATATTTTTTATTCATTCATATTTTGA
* *
1493823 TTTTTATTATGGTATTTTTATTTTATATTTTTTATTTATTCATATTTTGG
1 TTTTTATTAT-GT-TTTTTATTTTATATTTTTTATTCATTCATATTTTGA
*
1493873 TTTTTATTCTGTTTTTTATTT
1 TTTTTATTATGTTTTTTATTT
1493894 ATTTTAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
47 6 0.10
48 12 0.20
49 32 0.53
50 10 0.17
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.74
Consensus pattern (48 bp):
TTTTTATTATGTTTTTTATTTTATATTTTTTATTCATTCATATTTTGA
Found at i:1493954 original size:8 final size:7
Alignment explanation
Indices: 1493763--1493955 Score: 51
Period size: 7 Copynumber: 26.3 Consensus size: 7
1493753 CCAAAGAGGT
1493763 TTTTTTA
1 TTTTTTA
1493770 TTTTCTT-
1 TTTT-TTA
*
1493777 TTTTATA
1 TTTTTTA
1493784 TTTTGTT-
1 TTTT-TTA
1493791 TTATATTATA
1 TT-T-TT-TA
1493801 TTTTTTA
1 TTTTTTA
1493808 TTCATTTT-
1 TT--TTTTA
*
1493816 TATTTTA
1 TTTTTTA
1493823 -TTTTTA
1 TTTTTTA
**
1493829 TTATGGTA
1 TT-TTTTA
1493837 -TTTTTA
1 TTTTTTA
*
1493843 TTTTATA
1 TTTTTTA
1493850 TTTTTTA
1 TTTTTTA
*
1493857 TTTATTCA
1 TTT-TTTA
* *
1493865 TATTTTG
1 TTTTTTA
*
1493872 GTTTTTA
1 TTTTTTA
1493879 TTCTGTTT-
1 TT-T-TTTA
1493887 TTTATTTA
1 TTT-TTTA
1493895 TTTTAATT-
1 TTTT--TTA
1493903 TTATTGTTA
1 TT-TT-TTA
1493912 TTTTTTA
1 TTTTTTA
** *
1493919 -TGCTGA
1 TTTTTTA
*
1493925 TATTTTA
1 TTTTTTA
*
1493932 TTTTTTG
1 TTTTTTA
1493939 TTTTTTA
1 TTTTTTA
1493946 TTTTATTA
1 TTTT-TTA
1493954 TT
1 TT
1493956 CGTTCTAACA
Statistics
Matches: 133, Mismatches: 30, Indels: 45
0.64 0.14 0.22
Matches are distributed among these distances:
6 16 0.12
7 66 0.50
8 33 0.25
9 16 0.12
10 2 0.02
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (7 bp):
TTTTTTA
Found at i:1495455 original size:2 final size:2
Alignment explanation
Indices: 1495448--1495498 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1495438 TTTGATAATT
1495448 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1495490 TA TA TA TA T
1 TA TA TA TA T
1495499 TATTCAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1497535 original size:23 final size:23
Alignment explanation
Indices: 1497504--1497564 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
1497494 TCTTATATGG
*
1497504 CACTCCGGTGCATTTCTACGCGA
1 CACTACGGTGCATTTCTACGCGA
* * *
1497527 CACTACGGTGCAATTCTACGTGG
1 CACTACGGTGCATTTCTACGCGA
*
1497550 CACTTCGGTGCATTT
1 CACTACGGTGCATTT
1497565 ATATGAGCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.30, G:0.23, T:0.30
Consensus pattern (23 bp):
CACTACGGTGCATTTCTACGCGA
Found at i:1499423 original size:31 final size:31
Alignment explanation
Indices: 1499388--1499462 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
1499378 TTAAAACTTA
*
1499388 CAATATTATCTCCT-AACATTTAGTCCATTTG
1 CAATATGATC-CCTCAACATTTAGTCCATTTG
* *
1499419 CAATATGGTCCCTCAACATTTAGTCCGTTTG
1 CAATATGATCCCTCAACATTTAGTCCATTTG
* *
1499450 CAACATGGTCCCT
1 CAATATGATCCCT
1499463 GATGTAACTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (31 bp):
CAATATGATCCCTCAACATTTAGTCCATTTG
Found at i:1503495 original size:89 final size:89
Alignment explanation
Indices: 1503341--1503516 Score: 262
Period size: 89 Copynumber: 2.0 Consensus size: 89
1503331 TGTCTCATCC
* * * *
1503341 AGTTAGATTAATCGATTATTAATATTAGATTATGATTTCGTCTCCTACTGGATTAAATATCTAAT
1 AGTTAGATCAACCGATTATTAATATTAGATTATCATTTCGTCTCCTACTGGATTAAATATATAAT
*
1503406 AAATTCTTATATTTTTTAATTTCT
66 AAATTCTTATATTTCTTAATTTCT
* *
1503430 AGTTAGATCAACCGATTATTAATATTAGATTATCATTTCGTCTTCTACTTGATTAAATATATAAT
1 AGTTAGATCAACCGATTATTAATATTAGATTATCATTTCGTCTCCTACTGGATTAAATATATAAT
* * *
1503495 AAGTTGTTTTATTTCTTAATTT
66 AAATTCTTATATTTCTTAATTT
1503517 AAATACTTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.48
Consensus pattern (89 bp):
AGTTAGATCAACCGATTATTAATATTAGATTATCATTTCGTCTCCTACTGGATTAAATATATAAT
AAATTCTTATATTTCTTAATTTCT
Found at i:1504603 original size:28 final size:28
Alignment explanation
Indices: 1504569--1504626 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
1504559 TTTACCTTTC
1504569 ACCTTAAATTATATAGTACAAGAGAAAT
1 ACCTTAAATTATATAGTACAAGAGAAAT
1504597 ACCTTAAATTATATAGTACAAGAGAAAT
1 ACCTTAAATTATATAGTACAAGAGAAAT
1504625 AC
1 AC
1504627 GCTTTGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (28 bp):
ACCTTAAATTATATAGTACAAGAGAAAT
Found at i:1507645 original size:3 final size:3
Alignment explanation
Indices: 1507622--1507678 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
1507612 GATATATCCA
* * * * * *
1507622 ATG ATG ACG AGG ATG ACG ATG ATG ATG AAG ATG ATG -TG ATG GTG GTG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1507669 ATG ATG ATG A
1 ATG ATG ATG A
1507679 AGAATCAGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.32, C:0.04, G:0.39, T:0.26
Consensus pattern (3 bp):
ATG
Found at i:1513840 original size:29 final size:29
Alignment explanation
Indices: 1513779--1513841 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
1513769 AAGGGCTTAG
* * * *
1513779 TTTAAGATTTTAATATTTAAAATGTTTGG
1 TTTAAAATTTTAATATTTAAAATATATGA
*
1513808 TTTAAAATTTTAATATTTAGAATATATGA
1 TTTAAAATTTTAATATTTAAAATATATGA
1513837 TTTAA
1 TTTAA
1513842 TTAGGTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.51
Consensus pattern (29 bp):
TTTAAAATTTTAATATTTAAAATATATGA
Found at i:1515249 original size:48 final size:48
Alignment explanation
Indices: 1515176--1515287 Score: 179
Period size: 48 Copynumber: 2.3 Consensus size: 48
1515166 GAATGCCTTG
* *
1515176 AATCTCTAGACGTCTTCAATGTAATTTTTCCTATGCAAAATGGTTTTGGA
1 AATCT-TAG-CGTCTTCAATGTAATTTTTCCTATGCAAAATGATTTTGAA
*
1515226 AATCTTGGCGTCTTCAATGTAATTTTTCCTATGCAAAATGATTTTGAA
1 AATCTTAGCGTCTTCAATGTAATTTTTCCTATGCAAAATGATTTTGAA
1515274 AATCTTAGCGTCTT
1 AATCTTAGCGTCTT
1515288 TAGGTTTAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
48 51 0.88
49 2 0.03
50 5 0.09
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (48 bp):
AATCTTAGCGTCTTCAATGTAATTTTTCCTATGCAAAATGATTTTGAA
Found at i:1515464 original size:11 final size:11
Alignment explanation
Indices: 1515423--1515501 Score: 61
Period size: 11 Copynumber: 6.7 Consensus size: 11
1515413 GTTTTTATTT
*
1515423 TAATATTTAAA
1 TAATATTTTAA
*
1515434 TAAAATCTTTAA
1 TAATAT-TTTAA
1515446 TTTAATATTTTAA
1 --TAATATTTTAA
1515459 TAATA-TTTAA
1 TAATATTTTAA
1515469 TAATGATTTGATAA
1 TAAT-ATTT--TAA
* *
1515483 TAATAATTTGA
1 TAATATTTTAA
1515494 TAATATTT
1 TAATATTT
1515502 AATGATTTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 9 0.16
11 20 0.36
12 6 0.11
13 8 0.15
14 12 0.22
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:1515485 original size:14 final size:14
Alignment explanation
Indices: 1515466--1515550 Score: 74
Period size: 14 Copynumber: 6.2 Consensus size: 14
1515456 TAATAATATT
1515466 TAATAATGATTTGA
1 TAATAATGATTTGA
*
1515480 TAATAATAATTTGA
1 TAATAATGATTTGA
1515494 TAATATTTAATGATTTGA
1 T-A-A--TAATGATTTGA
*
1515512 TAATAATGA-AT--
1 TAATAATGATTTGA
1515523 TAATAATGA-TT--
1 TAATAATGATTTGA
1515534 TAATAATGATTTGA
1 TAATAATGATTTGA
1515548 TAA
1 TAA
1515551 CATTTTTGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
11 19 0.32
12 2 0.03
13 1 0.02
14 23 0.38
15 1 0.02
16 2 0.03
17 1 0.02
18 11 0.18
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
TAATAATGATTTGA
Found at i:1515505 original size:32 final size:33
Alignment explanation
Indices: 1515469--1515537 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 33
1515459 TAATATTTAA
*
1515469 TAATGATTTGATAATAAT-AATTTGATAAT-ATT
1 TAATGATTTGATAATAATGAA-TTAATAATGATT
1515501 TAATGATTTGATAATAATGAATTAATAATGATT
1 TAATGATTTGATAATAATGAATTAATAATGATT
1515534 TAAT
1 TAAT
1515538 AATGATTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 25 0.74
33 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (33 bp):
TAATGATTTGATAATAATGAATTAATAATGATT
Found at i:1515515 original size:11 final size:11
Alignment explanation
Indices: 1515458--1515550 Score: 52
Period size: 11 Copynumber: 8.4 Consensus size: 11
1515448 TAATATTTTA
*
1515458 ATAAT-ATTTA
1 ATAATGATTTG
1515468 ATAATGATTTG
1 ATAATGATTTG
*
1515479 ATAATAATAATTTG
1 ---ATAATGATTTG
1515493 ATAAT-A-TT-
1 ATAATGATTTG
1515501 -TAATGATTTG
1 ATAATGATTTG
* *
1515511 ATAATAATGAATTA
1 ---ATAATGATTTG
*
1515525 ATAATGATTTA
1 ATAATGATTTG
1515536 ATAATGATTTG
1 ATAATGATTTG
1515547 ATAA
1 ATAA
1515551 CATTTTTGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
7 4 0.06
8 1 0.02
9 4 0.06
10 6 0.09
11 33 0.50
14 18 0.27
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (11 bp):
ATAATGATTTG
Found at i:1515808 original size:11 final size:11
Alignment explanation
Indices: 1515778--1515830 Score: 61
Period size: 11 Copynumber: 4.4 Consensus size: 11
1515768 TAAAAATATT
1515778 TAATGATTTCAAA
1 TAATGATTT--AA
1515791 CTAATGATTTAA
1 -TAATGATTTAA
1515803 TAATGATTACTAA
1 TAATGATT--TAA
1515816 TAATGATTTAA
1 TAATGATTTAA
1515827 TAAT
1 TAAT
1515831 TATTATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 15 0.41
12 2 0.05
13 11 0.30
14 9 0.24
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:1515823 original size:24 final size:24
Alignment explanation
Indices: 1515778--1515898 Score: 93
Period size: 24 Copynumber: 4.9 Consensus size: 24
1515768 TAAAAATATT
* *
1515778 TAATGATTTCAAACTAATGATTTAA
1 TAATGATTACTAA-TAATGATTTAA
1515803 TAATGATTACTAATAATGATTTAA
1 TAATGATTACTAATAATGATTTAA
* * * * *
1515827 TAATTATTATTAATTTAA-AAATAAA
1 TAATGATTACTAA--TAATGATTTAA
* * *
1515852 AAATGATTTGA-TACTAATGATTTAG
1 TAATGA-TT-ACTAATAATGATTTAA
1515877 TAATGATTACTAATAATGATTT
1 TAATGATTACTAATAATGATTT
1515899 CATTGTGGTC
Statistics
Matches: 74, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
23 1 0.01
24 38 0.51
25 27 0.36
26 7 0.09
27 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (24 bp):
TAATGATTACTAATAATGATTTAA
Found at i:1516241 original size:15 final size:15
Alignment explanation
Indices: 1516219--1516251 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1516209 GCCAGAAGAT
1516219 AATTTTTTTAT-TTA
1 AATTTTTTTATCTTA
1516233 AATTTTTTTATCTTA
1 AATTTTTTTATCTTA
1516248 AATT
1 AATT
1516252 AATTAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTTTTTATCTTA
Found at i:1516503 original size:7 final size:7
Alignment explanation
Indices: 1516491--1516531 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
1516481 TTTATATATA
1516491 CCTAAAC
1 CCTAAAC
1516498 CCTAAAC
1 CCTAAAC
*
1516505 TCTAAAC
1 CCTAAAC
*
1516512 CTTAAAC
1 CCTAAAC
1516519 CCTAAAC
1 CCTAAAC
1516526 CCTAAA
1 CCTAAA
1516532 TAATAACTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:1518371 original size:24 final size:24
Alignment explanation
Indices: 1518339--1518459 Score: 84
Period size: 24 Copynumber: 4.9 Consensus size: 24
1518329 GACCATAATG
1518339 AAATCATTATTAGTAATCATTACT
1 AAATCATTATTAGTAATCATTACT
* *
1518363 AAATCATTAGTA-TCAAATCATTTCT
1 AAATCATTATTAGT--AATCATTACT
* ** * * *
1518388 -TATTTTTAAATTAATAATAATTATT
1 AAATCATT--ATTAGTAATCATTACT
*
1518413 AAATCATTATTAGTAATCATTATT
1 AAATCATTATTAGTAATCATTACT
* *
1518437 AAATCATTAGTTTGAAATCATTA
1 AAATCATTA-TTAGTAATCATTA
1518460 AACATTTTTA
Statistics
Matches: 74, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
23 1 0.01
24 38 0.51
25 27 0.36
26 7 0.09
27 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (24 bp):
AAATCATTATTAGTAATCATTACT
Found at i:1518423 original size:11 final size:11
Alignment explanation
Indices: 1518407--1518459 Score: 61
Period size: 11 Copynumber: 4.4 Consensus size: 11
1518397 ATTAATAATA
1518407 ATTATTAAATC
1 ATTATTAAATC
1518418 ATTATTAGTAATC
1 ATTATTA--AATC
1518431 ATTATTAAATC
1 ATTATTAAATC
1518442 ATTAGTTTGAAATC
1 ATTA--TT-AAATC
1518456 ATTA
1 ATTA
1518460 AACATTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 15 0.41
13 13 0.35
14 9 0.24
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:1518701 original size:14 final size:14
Alignment explanation
Indices: 1518682--1518741 Score: 66
Period size: 14 Copynumber: 4.0 Consensus size: 14
1518672 ATCAAAAATG
1518682 TTATCAAATCATTA
1 TTATCAAATCATTA
1518696 TTATCAAATCATTAAATA
1 TTATCAAATCA-T---TA
*
1518714 TTATCAAATAATTA
1 TTATCAAATCATTA
*
1518728 TTATTAAATCATTA
1 TTATCAAATCATTA
1518742 CTAAATATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 25 0.64
15 1 0.03
17 1 0.03
18 12 0.31
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (14 bp):
TTATCAAATCATTA
Found at i:1518728 original size:32 final size:32
Alignment explanation
Indices: 1518663--1518741 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
1518653 AATAATTGAG
* * *
1518663 TATTATTAAATCA-AAAATGTTATCAAATCAT
1 TATTATTAAATCATTAAATATTATCAAATAAT
*
1518694 TATTATCAAATCATTAAATATTATCAAATAAT
1 TATTATTAAATCATTAAATATTATCAAATAAT
1518726 TATTATTAAATCATTA
1 TATTATTAAATCATTA
1518742 CTAAATATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 12 0.29
32 30 0.71
ACGTcount: A:0.48, C:0.09, G:0.01, T:0.42
Consensus pattern (32 bp):
TATTATTAAATCATTAAATATTATCAAATAAT
Found at i:1518751 original size:24 final size:24
Alignment explanation
Indices: 1518706--1518754 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
1518696 TTATCAAATC
1518706 ATTAAATATTATCAAATAATTATT
1 ATTAAATATTATCAAATAATTATT
1518730 ATTAAATCATTA-CTAAAT-ATTATT
1 ATTAAAT-ATTATC-AAATAATTATT
1518754 A
1 A
1518755 AAACATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTAAATATTATCAAATAATTATT
Found at i:1520130 original size:22 final size:22
Alignment explanation
Indices: 1520105--1520158 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
1520095 TGCATCCTCC
*
1520105 ATAATTTCTCAACTATTTATCT
1 ATAATTTATCAACTATTTATCT
1520127 ATAATTTATCAACTATTTATCT
1 ATAATTTATCAACTATTTATCT
1520149 ATAATTTATC
1 ATAATTTATC
1520159 GTATCCTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATCAACTATTTATCT
Found at i:1520133 original size:11 final size:11
Alignment explanation
Indices: 1520119--1520158 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1520109 TTTCTCAACT
1520119 ATTTATCTATA
1 ATTTATCTATA
*
1520130 ATTTATCAACT-
1 ATTTATCTA-TA
1520141 ATTTATCTATA
1 ATTTATCTATA
1520152 ATTTATC
1 ATTTATC
1520159 GTATCCTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTATCTATA
Found at i:1520395 original size:21 final size:23
Alignment explanation
Indices: 1520345--1520395 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1520335 TATAAAAGTA
* *
1520345 TTATATATTTTATATAATTATTT
1 TTATTTATCTTATATAATTATTT
*
1520368 CTATTTATCTTAT-TAATT-TTT
1 TTATTTATCTTATATAATTATTT
1520389 TTATTTA
1 TTATTTA
1520396 AATTTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 9 0.38
22 5 0.21
23 10 0.42
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATTTATCTTATATAATTATTT
Found at i:1520735 original size:14 final size:14
Alignment explanation
Indices: 1520716--1520762 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1520706 ATTTTAAAAT
1520716 TAATTAATTATATA
1 TAATTAATTATATA
* *
1520730 TAATTATTTTTAT-
1 TAATTAATTATATA
*
1520743 TAAAATAATTATATA
1 T-AATTAATTATATA
1520758 TAATT
1 TAATT
1520763 TAATAAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTAATTATATA
Found at i:1520789 original size:28 final size:27
Alignment explanation
Indices: 1520724--1520790 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 27
1520714 ATTAATTAAT
* * * *
1520724 TATATATAATTATTTTTATTAAAATAA
1 TATATATAATTAATTTAATAAAAAAAA
1520751 T-TATAT-A-TAATTTAATAAAAAAAA
1 TATATATAATTAATTTAATAAAAAAAA
1520775 CTATATATAATTAATT
1 -TATATATAATTAATT
1520791 AATTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
24 13 0.41
25 2 0.06
26 10 0.31
27 2 0.06
28 5 0.16
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TATATATAATTAATTTAATAAAAAAAA
Found at i:1521737 original size:2 final size:2
Alignment explanation
Indices: 1521725--1521783 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
1521715 ATTTTTATCG
*
1521725 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1521767 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
1521784 CGAACATTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1522022 original size:31 final size:31
Alignment explanation
Indices: 1521984--1522108 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
1521974 CCCGAAGGAC
* * *
1521984 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
1522015 CAGTCCATATGTCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1522046 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1522077 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1522108 C
1 C
1522109 CCTCGACCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1526667 original size:31 final size:31
Alignment explanation
Indices: 1526644--1526784 Score: 264
Period size: 31 Copynumber: 4.5 Consensus size: 31
1526634 CATAGATTCT
* *
1526644 GAAGAACCTAGGTAATCAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
1526675 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
1526706 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
1526737 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
1526768 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
1526785 CCTCGACCCT
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:1530028 original size:32 final size:32
Alignment explanation
Indices: 1529951--1530028 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
1529941 ATCTATTGTG
* * *
1529951 CATTATCTGAATACATGACTAACTCTGGTATG
1 CATTATCTGAATGCAAGACTAACTCTGGTATA
* * *
1529983 CATTATCTAAATGCAAGATTAATTCTGGTATA
1 CATTATCTGAATGCAAGACTAACTCTGGTATA
1530015 CATTATCTGAATGC
1 CATTATCTGAATGC
1530029 GTCTCTAGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (32 bp):
CATTATCTGAATGCAAGACTAACTCTGGTATA
Found at i:1530657 original size:22 final size:22
Alignment explanation
Indices: 1530632--1530688 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1530622 TGTAATATGT
1530632 AAATATAAAAAAGAACAAAA-TA
1 AAATATAAAAAA-AACAAAATTA
*
1530654 AAATA-AAAAAAAATAAAATTA
1 AAATATAAAAAAAACAAAATTA
*
1530675 AGAATATTAAAAAA
1 A-AATATAAAAAAA
1530689 CCTTAGGGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.20
21 9 0.30
22 9 0.30
23 6 0.20
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (22 bp):
AAATATAAAAAAAACAAAATTA
Found at i:1530671 original size:20 final size:21
Alignment explanation
Indices: 1530631--1530672 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1530621 GTGTAATATG
*
1530631 TAAATATAAAAAAGAACAAAA
1 TAAATATAAAAAAAAACAAAA
*
1530652 TAAA-ATAAAAAAAAATAAAA
1 TAAATATAAAAAAAAACAAAA
1530672 T
1 T
1530673 TAAGAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
TAAATATAAAAAAAAACAAAA
Found at i:1530877 original size:44 final size:44
Alignment explanation
Indices: 1530809--1530904 Score: 165
Period size: 44 Copynumber: 2.2 Consensus size: 44
1530799 TAGCTATAGT
*
1530809 GTGAACATGACACAGTGTTGTTTATTTATTCCAACTTCTGGAAA
1 GTGAACATGACACAGTGTTGTTTATTTATTCCAACTTCTAGAAA
* *
1530853 GTGAACATGACCCAGTGTTTTTTATTTATTCCAACTTCTAGAAA
1 GTGAACATGACACAGTGTTGTTTATTTATTCCAACTTCTAGAAA
1530897 GTGAACAT
1 GTGAACAT
1530905 TAACCCTGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (44 bp):
GTGAACATGACACAGTGTTGTTTATTTATTCCAACTTCTAGAAA
Found at i:1532060 original size:3 final size:3
Alignment explanation
Indices: 1532052--1532083 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
1532042 TGAAAAAAGA
1532052 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
1532084 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1532446 original size:84 final size:85
Alignment explanation
Indices: 1532300--1532499 Score: 251
Period size: 84 Copynumber: 2.4 Consensus size: 85
1532290 CGCTGTCATC
* * * * * *
1532300 GAGCTGAATGAAATCAAATTCGTCAGGT-TTTTGGTGGCAGATAGCCCTTCTCGATTTAAGTTAT
1 GAGCTGAGTGAAATCGAACTCG-AAGGTCTTTTGGTGGCAGATAGCCCTTCTAGACTTAAGTTAT
1532364 GCTGCAAATGAT-GTGCCTTT
65 GCTGCAAATGATGGTGCCTTT
* * * * *
1532384 GAGCTGATTGTAATCGAACTCGAATGTCTTTTGGTGGCAGATAGCCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGTGAAATCGAACTCGAAGGTCTTTTGGTGGCAGATAGCCCTTCTAGACTTAAGTTATG
* *
1532449 TTGCGAATGATGGTGCCTTT
66 CTGCAAATGATGGTGCCTTT
*
1532469 GAGCTGAGTGAAATCGAACTCTAAGGTCTTT
1 GAGCTGAGTGAAATCGAACTCGAAGGTCTTT
1532500 GTGTTTCAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
83 3 0.03
84 60 0.61
85 35 0.36
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (85 bp):
GAGCTGAGTGAAATCGAACTCGAAGGTCTTTTGGTGGCAGATAGCCCTTCTAGACTTAAGTTATG
CTGCAAATGATGGTGCCTTT
Found at i:1532532 original size:33 final size:33
Alignment explanation
Indices: 1532491--1532586 Score: 86
Period size: 39 Copynumber: 2.8 Consensus size: 33
1532481 ATCGAACTCT
* **
1532491 AAGG-TCTTTGTGTTTCAAAAGAAATATTTTCA
1 AAGGTTCTTTGTGTTTCAAGAGAAATAAGTTCA
*
1532523 AATGTTCTTTTTTGTGTTGTTTCAAGAGAAATAAGTTCA
1 AAGGTTC----TT-TG-TGTTTCAAGAGAAATAAGTTCA
*
1532562 AAGGTTTTTTGTGTTTCAAGAGAAA
1 AAGGTTCTTTGTGTTTCAAGAGAAA
1532587 CTGTCTCAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
32 3 0.06
33 16 0.31
34 2 0.04
35 2 0.04
37 2 0.04
38 2 0.04
39 24 0.47
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (33 bp):
AAGGTTCTTTGTGTTTCAAGAGAAATAAGTTCA
Found at i:1532620 original size:37 final size:37
Alignment explanation
Indices: 1532573--1532891 Score: 184
Period size: 37 Copynumber: 9.1 Consensus size: 37
1532563 AGGTTTTTTG
*
1532573 TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * *
1532610 TGTTTCAAGAGAAA-TATATTC-----A-AC--GATTGG
1 TGTTTCAAGAGAAACTGT-CTCAAGGGAGACAAAATT-T
*
1532640 TGTTTCAAGAGAAACTGTCTCAAGAGG-G-GAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAG-GGAGACAAAATTT
* *
1532676 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * * *
1532713 AG-TTCTAAAAGAAACTGTGTCAAAGGAGACGAAATTT
1 TGTTTC-AAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
1532750 T-TTTCAAG-GAAAACAGAT-TCAA---AG-----ATCT
1 TGTTTCAAGAG-AAACTG-TCTCAAGGGAGACAAAATTT
* **
1532778 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
1532814 TGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * *
1532851 AGTTCCAAAAGAAACTATCTCAAGGGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1532887 TGTTT
1 TGTTT
1532892 ACTGTAAAAC
Statistics
Matches: 216, Mismatches: 36, Indels: 61
0.69 0.12 0.19
Matches are distributed among these distances:
28 5 0.02
29 19 0.09
30 17 0.08
31 4 0.02
32 3 0.01
33 2 0.01
35 2 0.01
36 78 0.36
37 86 0.40
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:1532632 original size:70 final size:66
Alignment explanation
Indices: 1532539--1532689 Score: 189
Period size: 67 Copynumber: 2.2 Consensus size: 66
1532529 CTTTTTTGTG
* * *
1532539 TTGTTTCAAGAGAAATAAGTTCAAAGGTTTTTTGTGTTTCAAGAGAAACTGTCTCAAG-GGAAAC
1 TTGTTTCAAGAGAAATAAGTTC-AACG--ATTGGTGTTTCAAGAGAAACTGTCTCAAGAGG--AC
1532603 AAAATT
61 AAAATT
**
1532609 TTGTTTCAAGAGAAATATA-TTCAACGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGGGGAAAA
1 TTGTTTCAAGAGAAATA-AGTTCAACGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGGACAAAA
1532673 TT
65 TT
1532675 TTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAA
1532690 CTGTCTCAAG
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
66 21 0.28
67 27 0.36
68 2 0.03
69 3 0.04
70 20 0.27
71 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGAGAAATAAGTTCAACGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGGACAAAAT
T
Found at i:1532794 original size:138 final size:138
Alignment explanation
Indices: 1532582--1533113 Score: 440
Period size: 138 Copynumber: 3.9 Consensus size: 138
1532572 GTGTTTCAAG
* * *
1532582 AGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAA-GAGAAATATATTCAACGATTGGTGTTTC
1 AGAAACTGTCTCAAGGGAGACAAAATTTT-TTTCAAGGA-AAACATATTCAAAGATT-GTGTTTC
* * *
1532646 AAGAGAAACTGTCTCAAGAGGGGA-AAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
63 AAGAGAAACTGTCTCAA-AAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
1532710 CTTAGTTCTAAA
127 CTTAGTTCCAAA
* * * *
1532722 AGAAACTGTGTCAAAGGAGACGAAATTTTTTTCAAGGAAAACAGATTCAAAGATCT-TGTTTCAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTTTTTCAAGGAAAACATATTCAAAGAT-TGTGTTTCAA
* *
1532786 GGGAAACTGTCTCAAAAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTT
65 GAGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1532851 AGTTCCAAA
130 AGTTCCAAA
* * * *
1532860 AGAAACTATCTCAAGGGAGACAAAATTTGTTT-ACTGTAAAACATATTCAAAGA-----TTTCAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTTTTTCA-AGGAAAACATATTCAAAGATTGTGTTTCAA
* * * * * *
1532919 GGGAAACTGTTTTC--AA-AG-----TTTATGTTTCAAGAGAAACCGTCTCAAGGGAGACAAAAT
65 GAGAAACTG-TCTCAAAAGAGACAAAATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* *
1532976 TTTGTT-TAAA
128 TTAGTTCCAAA
* * * * ** * * * *
1532986 GGGAATCTATCTCAAGAGG-GACACAATTCATTTCAAGGGAAATGC-T-TTCAATGTTTATGTTT
1 -AGAAACTGTCTCAAG-GGAGACAAAATTTTTTTCAA-GGAAA-ACATATTCAAAGATTGTGTTT
* ** * *
1533048 AAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAA
62 CAAGAGAAACTGTCTCAAAAGAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
1533113 A
126 A
1533114 TTCATTTCAA
Statistics
Matches: 318, Mismatches: 49, Indels: 51
0.76 0.12 0.12
Matches are distributed among these distances:
126 5 0.02
127 66 0.21
128 8 0.03
129 1 0.00
131 5 0.02
132 15 0.05
133 15 0.05
134 5 0.02
137 5 0.02
138 114 0.36
139 49 0.15
140 30 0.09
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTTTTTCAAGGAAAACATATTCAAAGATTGTGTTTCAAG
AGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
GTTCCAAA
Found at i:1532828 original size:36 final size:36
Alignment explanation
Indices: 1532777--1532891 Score: 149
Period size: 36 Copynumber: 3.2 Consensus size: 36
1532767 TTCAAAGATC
* *
1532777 TTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
*
1532813 TTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-T
* * * * *
1532850 TAGTTCCAAAAGAAACTATCTCAAGGGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
1532886 TTGTTT
1 TTGTTT
1532892 ACTGTAAAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
36 37 0.55
37 30 0.45
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
Found at i:1533094 original size:37 final size:36
Alignment explanation
Indices: 1533043--1533129 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 36
1533033 TCAATGTTTA
* * * *
1533043 TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1533080 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
1533116 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
1533130 TGTTTATGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 14 0.32
37 30 0.68
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:1533105 original size:102 final size:102
Alignment explanation
Indices: 1532912--1533299 Score: 578
Period size: 102 Copynumber: 3.9 Consensus size: 102
1532902 ATATTCAAAG
* *
1532912 ATTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACCGTCTCAAGGGAGACAAAATT
1 ATTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* * * *
1532977 TTGTTTAAAGGGAATCTATCTCAAGAGGGACACAATTC
65 TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
* *
1533015 ATTTCAAGGGAAATGCTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1533080 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
66 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
*
1533117 ATTTCAAGGGAAATG-TTT--ATG-----CTTT-AAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1533173 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
66 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
*
1533210 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACCAAATTT
1 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA-CAAAATT
* *
1533275 TCTGTTTCGAGGGAAACTATATCAA
65 T-TGTTTCAAGGGAAACTATCTCAA
1533300 ACGATATAAA
Statistics
Matches: 261, Mismatches: 13, Indels: 21
0.88 0.04 0.07
Matches are distributed among these distances:
93 83 0.32
94 6 0.02
96 3 0.01
99 3 0.01
101 6 0.02
102 119 0.46
103 20 0.08
104 21 0.08
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
Found at i:1533193 original size:195 final size:197
Alignment explanation
Indices: 1532936--1533299 Score: 608
Period size: 195 Copynumber: 1.9 Consensus size: 197
1532926 TGTTTTCAAA
*
1532936 GTTTATGTTTCAAGAGAAACCGTCTCAAGGGAGACAAAATTTTGTTTAAAGGGAATCTATCTCAA
1 GTTTATGTTTCAAGAGAAACCGTCTCAAGGGAGACAAAATTTTGTTTAAAGGGAAACTATCTCAA
* *
1533001 GAGGGACACAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAA
66 GAGAGACAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAA
*
1533066 GGGAGA-CAAAATTT-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAA
131 GGGAGACCAAAATTTCTGTTTCAAGGGAAACTATATCAAGAGAGACAAAATTCATTTCAAGGGAA
1533129 AT
196 AT
* *
1533131 GTTTATGCTTT-AAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCA
1 GTTTATG-TTTCAAGAGAAACCGTCTCAAGGGAGACAAAATTTTGTTTAAAGGGAAACTATCTCA
* *
1533195 AGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCA
65 AGAGAGACAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCA
* *
1533260 AGGGAGACCAAATTTTCTGTTTCGAGGGAAACTATATCAA
130 AGGGAGACCAAAATTTCTGTTTCAAGGGAAACTATATCAA
1533300 ACGATATAAA
Statistics
Matches: 156, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
195 125 0.80
196 10 0.06
197 21 0.13
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (197 bp):
GTTTATGTTTCAAGAGAAACCGTCTCAAGGGAGACAAAATTTTGTTTAAAGGGAAACTATCTCAA
GAGAGACAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAA
GGGAGACCAAAATTTCTGTTTCAAGGGAAACTATATCAAGAGAGACAAAATTCATTTCAAGGGAA
AT
Found at i:1533222 original size:36 final size:37
Alignment explanation
Indices: 1533146--1533222 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
1533136 TGCTTTAAGA
* * **
1533146 GAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGG
1 GAAACTATCTCAAGAGAGACAAAATTTCATTTCAAGG
1533183 GAAACTATCTCAAGAGAGACAAAA-TTCATTTCAAGG
1 GAAACTATCTCAAGAGAGACAAAATTTCATTTCAAGG
1533219 GAAA
1 GAAA
1533223 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 14 0.39
37 22 0.61
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (37 bp):
GAAACTATCTCAAGAGAGACAAAATTTCATTTCAAGG
Found at i:1533454 original size:72 final size:75
Alignment explanation
Indices: 1533327--1533477 Score: 186
Period size: 72 Copynumber: 2.0 Consensus size: 75
1533317 TTAAAAATAG
*
1533327 TCTTGAGTGAAATAAAATGCCTTCCTTCAAGTGAAAACGATCTCAAGAAAGACAAA-TCTTGTTT
1 TCTTGAGTGAAATAAAAT-CCTTCCTTCAAGTGAAAAAGATCTCAAGAAAGACAAAGTC-TGTTT
1533391 TAAGAAAAACAA
64 TAAGAAAAACAA
* * **
1533403 TCTTGAGTGAAAT-AAAT-CTTCTTTCGAGT-AAAATAG-TCTCAAGTGAGACAAAGTCTGTTTT
1 TCTTGAGTGAAATAAAATCCTTCCTTCAAGTGAAAA-AGATCTCAAGAAAGACAAAGTCTGTTTT
*
1533464 AAGAAAAGCAA
65 AAGAAAAACAA
1533475 TCT
1 TCT
1533478 CAAGTGAGAT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
72 37 0.55
73 13 0.19
75 4 0.06
76 13 0.19
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (75 bp):
TCTTGAGTGAAATAAAATCCTTCCTTCAAGTGAAAAAGATCTCAAGAAAGACAAAGTCTGTTTTA
AGAAAAACAA
Found at i:1538658 original size:3 final size:3
Alignment explanation
Indices: 1538652--1538693 Score: 66
Period size: 3 Copynumber: 13.3 Consensus size: 3
1538642 AAAAAGAAGA
1538652 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT A
1538694 TTTTAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 31 0.82
4 7 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1539494 original size:12 final size:12
Alignment explanation
Indices: 1539477--1539501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1539467 TCAAGAACTT
1539477 CAACTCGAGTTG
1 CAACTCGAGTTG
1539489 CAACTCGAGTTG
1 CAACTCGAGTTG
1539501 C
1 C
1539502 TTGTGTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (12 bp):
CAACTCGAGTTG
Found at i:1540290 original size:26 final size:26
Alignment explanation
Indices: 1540256--1540321 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
1540246 ATACCATGAA
*
1540256 TATTATTGATTGAATTGGACTATCAT
1 TATTATTGATTGAATTGAACTATCAT
* *
1540282 TATTATTGATTGAATTTAACTATGAT
1 TATTATTGATTGAATTGAACTATCAT
1540308 TATTATTGATTGAA
1 TATTATTGATTGAA
1540322 ATGAGTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (26 bp):
TATTATTGATTGAATTGAACTATCAT
Found at i:1540331 original size:26 final size:26
Alignment explanation
Indices: 1540251--1540335 Score: 93
Period size: 26 Copynumber: 3.3 Consensus size: 26
1540241 AGCTTATACC
*
1540251 ATGAATATTATTGATTGAATTG-GACT
1 ATGATTATTATTGATTGAATTGAG-CT
* * *
1540277 ATCATTATTATTGATTGAATTTAACT
1 ATGATTATTATTGATTGAATTGAGCT
* *
1540303 ATGATTATTATTGATTGAAATGAGTT
1 ATGATTATTATTGATTGAATTGAGCT
1540329 ATG-TTAT
1 ATGATTAT
1540336 GACTTGTGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 4 0.08
26 45 0.92
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (26 bp):
ATGATTATTATTGATTGAATTGAGCT
Found at i:1543141 original size:23 final size:23
Alignment explanation
Indices: 1543115--1543175 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
1543105 CACCACAGCT
*
1543115 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1543138 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1543161 TGTAGAATTGCACCG
1 CGTAGAATTGCACCG
1543176 TGGTGCCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1543181 original size:23 final size:22
Alignment explanation
Indices: 1543115--1543183 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
1543105 CACCACAGCT
* *
1543115 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCG-GGTGCCA
*
1543138 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGG-GTGCCA
*
1543161 TGTAGAATTGCACCGTGGTGCCA
1 CGTAGAATTGCACCG-GGTGCCA
1543184 TATAATAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (22 bp):
CGTAGAATTGCACCGGGTGCCA
Found at i:1543370 original size:103 final size:103
Alignment explanation
Indices: 1543199--1543411 Score: 347
Period size: 103 Copynumber: 2.1 Consensus size: 103
1543189 TAATGTCCAT
* * *
1543199 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATACCTTAAGAATCATATACATATACAAGAGATCAAGTATGTGTCTCACCA
* *
1543264 GACTTCATACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
* *
1543302 AATGACCACATATCATACCTTAAGAATCATATACATATGCCAAG-GATCAAGTATGTGTCTCACC
1 AAGGACCACATATCATACCTTAAGAATCATATACATAT-ACAAGAGATCAAGTATGTGTCTCACC
1543366 AGACTTCACACATATTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATATTCCAAAGAATACATATATGTCCCG
1543405 AAGGACC
1 AAGGACC
1543412 GCGTAGACCC
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 98 0.97
104 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATACCTTAAGAATCATATACATATACAAGAGATCAAGTATGTGTCTCACCA
GACTTCACACATATTCCAAAGAATACATATATGTCCCG
Found at i:1544816 original size:21 final size:21
Alignment explanation
Indices: 1544758--1544816 Score: 93
Period size: 20 Copynumber: 2.9 Consensus size: 21
1544748 TTCGCTTGAG
* *
1544758 GGGTATCGATTCCCCATGAAT
1 GGGTACCGATTCCCCTTGAAT
1544779 GGGTACCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
1544799 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
1544817 CCCATAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:1545730 original size:16 final size:16
Alignment explanation
Indices: 1545691--1545733 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1545681 AGCATCAGTT
*
1545691 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
1545707 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
1545724 CTTATCAATC
1 CTTATCAATC
1545734 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:1548512 original size:23 final size:23
Alignment explanation
Indices: 1548486--1548546 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
1548476 CACCACAGCT
* *
1548486 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTACCA
* *
1548509 CGTAGAATTGCACCGGAGTACCG
1 CGTAGAATTGCACCGAAGTACCA
1548532 CGTAGAATTGCACCG
1 CGTAGAATTGCACCG
1548547 TGGTGCCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTACCA
Found at i:1548682 original size:21 final size:20
Alignment explanation
Indices: 1548634--1548685 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1548624 GTGTCTCACC
* * *
1548634 AGACTTCATACATGTTCCAA
1 AGACTACATATATGTCCCAA
*
1548654 AGAATACATATATGTCCCGAA
1 AGACTACATATATGTCCC-AA
1548675 AGACTACATAT
1 AGACTACATAT
1548686 CATTCCTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (20 bp):
AGACTACATATATGTCCCAA
Found at i:1548741 original size:103 final size:103
Alignment explanation
Indices: 1548577--1548777 Score: 357
Period size: 103 Copynumber: 2.0 Consensus size: 103
1548567 CATAAGGACC
* *
1548577 ACATATCATTCCTTAAGAATCATATAAATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATAAATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCA
*
1548642 TACATGTTCCAAAGAATACATATATGTCCCGAAAGACT
66 CACATGTTCCAAAGAATACATATATGTCCCGAAAGACT
* *
1548680 ACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATAAATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCA
1548745 CACATGTTCCAAAGAATACATATATGTCCCGAA
66 CACATGTTCCAAAGAATACATATATGTCCCGAA
1548778 GGACCGCGTA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (103 bp):
ACATATCATTCCTTAAGAATCATATAAATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCA
CACATGTTCCAAAGAATACATATATGTCCCGAAAGACT
Found at i:1550428 original size:12 final size:12
Alignment explanation
Indices: 1550411--1550446 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
1550401 TTGACAAGTC
1550411 AAATTCAACTTA
1 AAATTCAACTTA
1550423 AAATTCAACTTA
1 AAATTCAACTTA
1550435 AAATTCAACTTA
1 AAATTCAACTTA
1550447 TCAACTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATTCAACTTA
Found at i:1552688 original size:2 final size:2
Alignment explanation
Indices: 1552677--1552744 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
1552667 GAATATAAAC
1552677 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1552718 AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1552745 GCCACAATAC
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1552986 original size:23 final size:23
Alignment explanation
Indices: 1552955--1553015 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
1552945 TACCACAGCT
* *
1552955 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTACCA
* *
1552978 CGTAGAATTGCACCGGAGTACCG
1 CGTAGAATTGCACCGAAGTACCA
*
1553001 CGTAGAATTACACCG
1 CGTAGAATTGCACCG
1553016 TGGTGCCATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTACCA
Found at i:1554525 original size:22 final size:21
Alignment explanation
Indices: 1554497--1554555 Score: 84
Period size: 20 Copynumber: 2.8 Consensus size: 21
1554487 TTCGCTTGAG
1554497 GGGTATCGATTCCCCATTAAAT
1 GGGTATCGATTCCCC-TTAAAT
* *
1554519 GGGTATCAATT-CCCTTGAAT
1 GGGTATCGATTCCCCTTAAAT
1554539 GGGTATCGATTCCCCTT
1 GGGTATCGATTCCCCTT
1554556 GCACAGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.45
21 8 0.24
22 10 0.30
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (21 bp):
GGGTATCGATTCCCCTTAAAT
Found at i:1562073 original size:16 final size:17
Alignment explanation
Indices: 1562052--1562083 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1562042 TTACTATTCA
1562052 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
1562068 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
1562084 CGGTCGGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:1566156 original size:35 final size:35
Alignment explanation
Indices: 1566110--1566191 Score: 164
Period size: 35 Copynumber: 2.3 Consensus size: 35
1566100 TCGTTAAAAG
1566110 TTTCAAAGTTTGACAACCAACTTTGGAAAATGTTT
1 TTTCAAAGTTTGACAACCAACTTTGGAAAATGTTT
1566145 TTTCAAAGTTTGACAACCAACTTTGGAAAATGTTT
1 TTTCAAAGTTTGACAACCAACTTTGGAAAATGTTT
1566180 TTTCAAAGTTTG
1 TTTCAAAGTTTG
1566192 GTAAATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (35 bp):
TTTCAAAGTTTGACAACCAACTTTGGAAAATGTTT
Found at i:1575205 original size:13 final size:13
Alignment explanation
Indices: 1575187--1575223 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1575177 ACGGTCAGCG
1575187 GTCAACGGGTCGA
1 GTCAACGGGTCGA
* *
1575200 GTCAACAGGTCGG
1 GTCAACGGGTCGA
1575213 GTCAACGGGTC
1 GTCAACGGGTC
1575224 AAACCGGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:1580336 original size:23 final size:23
Alignment explanation
Indices: 1580273--1580327 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
1580263 GAGTTGTTAC
*
1580273 AAAATTCATCAGGAAAAGATAGA
1 AAAATTCAACAGGAAAAGATAGA
1580296 AAAATTCAACAGGAAAAGATAGA
1 AAAATTCAACAGGAAAAGATAGA
1580319 AAAATTCAA
1 AAAATTCAA
1580328 TGTATAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.60, C:0.09, G:0.15, T:0.16
Consensus pattern (23 bp):
AAAATTCAACAGGAAAAGATAGA
Found at i:1583004 original size:23 final size:23
Alignment explanation
Indices: 1582970--1583042 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
1582960 ATAATTTACA
1582970 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1582993 ATATAAGTGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1583016 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1583039 ATAT
1 ATAT
1583043 TTTTACCTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1583495 original size:23 final size:23
Alignment explanation
Indices: 1583460--1583532 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1583450 ATACTTTACA
*
1583460 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1583483 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
1583506 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1583529 ATAT
1 ATAT
1583533 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1583989 original size:23 final size:23
Alignment explanation
Indices: 1583954--1584026 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1583944 ATACTTTACA
*
1583954 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
1583977 ATATAAACGCTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
1584000 ATATAAGCGCTATCTATTACATA
1 ATATAAGCGCTACCTATTACATT
1584023 ATAT
1 ATAT
1584027 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1584482 original size:23 final size:23
Alignment explanation
Indices: 1584447--1584519 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1584437 ATACTTTACA
* *
1584447 ATATAAGCACTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1584470 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
1584493 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1584516 ATAT
1 ATAT
1584520 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1584972 original size:23 final size:23
Alignment explanation
Indices: 1584937--1585009 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1584927 ATACTTTACA
*
1584937 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* **
1584960 ATATAAACGCTACCTATTATTTT
1 ATATAAGCGCTACCTATTACATT
*
1584983 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1585006 ATAT
1 ATAT
1585010 TTTTACGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1585462 original size:23 final size:23
Alignment explanation
Indices: 1585427--1585499 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1585417 ATACTTTACA
*
1585427 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1585450 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1585473 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1585496 ATAT
1 ATAT
1585500 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1585651 original size:489 final size:490
Alignment explanation
Indices: 1582569--1585921 Score: 5732
Period size: 490 Copynumber: 6.8 Consensus size: 490
1582559 TTATAATATG
* * *
1582569 TTGAAAGTGTCTATATTTTTTATAAAAATGATCGATATTTTTTTAAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTTTTTTTAAAGTTATGTAATTTATGTT
* *
1582634 TTAA--TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
1582697 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
* *
1582762 TAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* * ** * *
1582827 ACTGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * *
1582892 CAAAAGATAACCTTAAATTAATGTTTTCCATAGTGAAATAAGTATGGACACTTCTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* * **
1582957 TAGATAATTTACAATATAAGCGCTACCTATTACATTATATAAGTGCTACCTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
1583022 GCGCTACCTATTACATCATATTTTTACCTGA-TATA
456 GCGCTACCTATTACATCATATTTTTACCT-ATTATA
** * * *
1583057 TTGTAAAGCATCGATCCTTTTTATAAAAAAGATCGATATTTTTTTTAAAGTTATGTAATTTATG-
1 TTG-AAAGTGTCCATACTTTTTATAAAAATGATCGATATTTTTTTTAAAGTTATGTAATTTATGT
*
1583121 TTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
1583186 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAACTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
*
1583251 TTAACCAAAGATAATGATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* *
1583316 TACCGTAACGTAAAAAATTAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * *
1583381 TCAAAATATAACCTTAAATTAATATTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
1583446 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
390 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
*
1583511 AGTGCTACCTATTACATCATATTTTTACCTATTATA
455 AGCGCTACCTATTACATCATATTTTTACCTATTATA
* * *
1583547 TTGAAAGTGTCCATACATTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTTTTTTTAAAGTTATGTAATTTATGTT
* *
1583612 TCAATTTTTTTTAATATTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
1583677 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
1583742 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAATA
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAA-TT--TAATAATAAT-
* *
1583807 ATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
257 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
* *
1583872 CACTCAAAAGATAACCTTAAATTAATGTTTTTCAGAGTGAAAAAAGTATGGACACTTTTATAAAA
322 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
*
1583937 AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACATATTACATTAT
387 AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTAT
* *
1584002 ATAAGCGCTATCTATTACATAATATTTTTACCTATTATA
452 ATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
1584041 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTTTAAAGTTATGTAATTTAT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATA---TTTTTTTTAAAGTTATGTAATTTAT
* * *
1584106 GTTTCAATTTTTTTTAATAGTGCTTCATTTTTTCCACCTACAATATTATTTTAATAATTTCATTT
63 GTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
*
1584171 ACATAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAA
128 ACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAA
*
1584236 TATTAACCAAAGATAATGATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATA
193 TATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATA
* *
1584301 TATACCGTAACGTAAAAAATTAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTC
258 TATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTC
* *
1584366 ACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTAAAAAAA
323 ACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAA
* *
1584431 TGATAGATACTTTACAATATAAGCACTACTTATTACATTATATAAACGCTACCTATTACATTATA
388 GGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATA
*
1584496 TAAGTGCTACCTATTACATCATATTTTTACCTATTATA
453 TAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* * * *
1584534 TTGAAAGTGTCAATACTTTTTATAAAAAGGATCGATACTTTTTTTAATGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTTTTTTTAAAGTTATGTAATTTATGTT
* *
1584599 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
1584663 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
1584728 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAATA
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT-ATA
*
1584793 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* *
1584858 TCAAAAGATAACTTTAAATTAATGTTTTCCAGAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
**
1584923 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTATTTTATATA
390 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
*
1584988 AGCGCTACCTATTACATCATATTTTTACGTATTATA
455 AGCGCTACCTATTACATCATATTTTTACCTATTATA
*
1585024 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTTAAAGTCATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATA-TTTTTTTTAAAGTTATGTAATTTATGT
* *
1585089 TTCAATTTTTTTAAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* * *
1585154 ACAAAAAATTATTTAATTATTTTGATATTTTATAAAATATTATTTAGCATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
* *
1585219 TTAATCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
1585284 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
1585349 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTGTGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
1585413 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
390 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
1585478 AGCGCTACCTATTACATCATATTTTTACCTATTATA
455 AGCGCTACCTATTACATCATATTTTTACCTATTATA
*
1585514 TTGAAAGTGTCCATATTTTTTATAAAAATGATCGATATTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTTTTTTTAAAGTTATGTAATTTATGTT
*
1585579 TCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
1585644 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATTT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
1585709 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
1585774 ACCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
1585839 CAAAAGATAACTTTAAATTAATGTTTT-CAC-GTTGAAAAAAGTATGGACACTTTTATAAAAATG
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAG-TGAAAAAAGTATGGACACTTTTATAAAAAGG
1585902 ATAGATACTTTACAATATAA
390 ATAGATACTTTACAATATAA
1585922 CAGGTAAAAA
Statistics
Matches: 2707, Mismatches: 141, Indels: 33
0.94 0.05 0.01
Matches are distributed among these distances:
487 1 0.00
488 12 0.00
489 637 0.24
490 1017 0.38
491 132 0.05
492 176 0.07
493 266 0.10
494 266 0.10
496 2 0.00
497 198 0.07
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (490 bp):
TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
GCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:1588745 original size:20 final size:19
Alignment explanation
Indices: 1588718--1588832 Score: 70
Period size: 20 Copynumber: 5.8 Consensus size: 19
1588708 ATGACCAACA
1588718 AATTCGCAACGCGAATTCC
1 AATTCGCAACGCGAATTCC
* *
1588737 AATTTCGCAAC-CTAGTTTCC
1 AA-TTCGCAACGCGA-ATTCC
**
1588757 AATTCGCAACGCGAATATGT
1 AATTCGCAACGCGAAT-TCC
* ** * *
1588777 AAATCGCATTGTGATTTTCC
1 AATTCGCAACGCGA-ATTCC
* *
1588797 AAATTCGCAACGCGATAGTCA
1 -AATTCGCAACGCGA-ATTCC
1588818 AATTCGCAACGCGAA
1 AATTCGCAACGCGAA
1588833 AGTCAAATTC
Statistics
Matches: 70, Mismatches: 20, Indels: 12
0.69 0.20 0.12
Matches are distributed among these distances:
19 14 0.20
20 42 0.60
21 14 0.20
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (19 bp):
AATTCGCAACGCGAATTCC
Found at i:1588784 original size:39 final size:41
Alignment explanation
Indices: 1588716--1588827 Score: 99
Period size: 39 Copynumber: 2.8 Consensus size: 41
1588706 AAATGACCAA
** *
1588716 CAAATTCGCAACGCGAAT-TCCAATTTCGCAACCT-AGTTTC
1 CAAATTCGCAACGCGAATATGTAA-ATCGCAACCTGAGTTTC
*** *
1588756 C-AATTCGCAACGCGAATATGTAAATCGCATTGTGATTTTC
1 CAAATTCGCAACGCGAATATGTAAATCGCAACCTGAGTTTC
1588796 CAAATTCGCAACGCG-ATA-GTCAAATTCGCAAC
1 CAAATTCGCAACGCGAATATGT-AAA-TCGCAAC
1588828 GCGAAAGTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
39 24 0.41
40 16 0.28
41 18 0.31
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (41 bp):
CAAATTCGCAACGCGAATATGTAAATCGCAACCTGAGTTTC
Found at i:1588836 original size:20 final size:20
Alignment explanation
Indices: 1588796--1588866 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
1588786 TGTGATTTTC
*
1588796 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
1588816 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* * **
1588836 CAAATTCTCAAC-TGAATTT
1 CAAATTCGCAACGCGAAAGT
1588855 CAAATTCGCAAC
1 CAAATTCGCAAC
1588867 TGAATTTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:1588859 original size:19 final size:19
Alignment explanation
Indices: 1588815--1588881 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1588805 AACGCGATAG
* **
1588815 TCAAATTCGCAACGCGAAAG
1 TCAAATTCGCAAC-TGAATT
*
1588835 TCAAATTCTCAACTGAATT
1 TCAAATTCGCAACTGAATT
1588854 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
1588873 TCAAATTCG
1 TCAAATTCG
1588882 TAACACAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 30 0.71
20 12 0.29
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:1589633 original size:12 final size:12
Alignment explanation
Indices: 1589612--1589645 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1589602 ACCACATTTC
*
1589612 CAATACCAAACA
1 CAATATCAAACA
1589624 CAATATCAAACA
1 CAATATCAAACA
*
1589636 CAATCTCAAA
1 CAATATCAAA
1589646 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1589803 original size:24 final size:24
Alignment explanation
Indices: 1589771--1589824 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1589761 GTATTCGAAA
*
1589771 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1589795 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1589819 TTTGAT
1 TTTGAT
1589825 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1590016 original size:12 final size:12
Alignment explanation
Indices: 1589999--1590023 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1589989 GTATAACCCT
1589999 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1590011 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1590023 G
1 G
1590024 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1593338 original size:39 final size:39
Alignment explanation
Indices: 1593251--1593339 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 39
1593241 TCTGATGCTC
* *
1593251 ATCAAAATCCAAAGCTCATATGGTGTCAAGCAAAAGGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
* *
1593290 ATCAAAATCTAAATCTCATATGGTGCCAAGCAAAATGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
1593329 ATCAAAATCTA
1 ATCAAAATCTA
1593340 CAACTTGAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.21
Consensus pattern (39 bp):
ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:1595358 original size:4 final size:4
Alignment explanation
Indices: 1595333--1595378 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
1595323 GGGCCGCAGA
* * *
1595333 AAAT AAAT TAAT ATAT ATAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1595379 TGCTGAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:1597655 original size:22 final size:22
Alignment explanation
Indices: 1597630--1597676 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1597620 GAGATAGACA
*
1597630 GATTTCGTTGGAAATGGGGACG
1 GATTTCGTCGGAAATGGGGACG
1597652 GATTTCGTCGGAAATGGGGACG
1 GATTTCGTCGGAAATGGGGACG
1597674 GAT
1 GAT
1597677 GTCGCCATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.11, G:0.40, T:0.26
Consensus pattern (22 bp):
GATTTCGTCGGAAATGGGGACG
Found at i:1597817 original size:20 final size:19
Alignment explanation
Indices: 1597791--1597867 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 19
1597781 AATATTGTGT
1597791 TTCGCGTTGCGAATTTGAC
1 TTCGCGTTGCGAATTTGAC
1597810 TATCGCGTTGCGAATTTGAC
1 T-TCGCGTTGCGAATTTGAC
1597830 TTCTGCGTTGCGAATTTGAC
1 TTC-GCGTTGCGAATTTGAC
*
1597850 TTTCGCGTTACGAATTTG
1 -TTCGCGTTGCGAATTTG
1597868 GAAAATCGCA
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (19 bp):
TTCGCGTTGCGAATTTGAC
Found at i:1600900 original size:16 final size:16
Alignment explanation
Indices: 1600879--1600910 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1600869 TATACACTTT
1600879 TATAAAAATATATATA
1 TATAAAAATATATATA
*
1600895 TATAAAATTATATATA
1 TATAAAAATATATATA
1600911 ATCATCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAAAATATATATA
Found at i:1600906 original size:14 final size:14
Alignment explanation
Indices: 1600879--1600911 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1600869 TATACACTTT
1600879 TATAAAAATATATA
1 TATAAAAATATATA
1600893 TATATAAAAT-TATA
1 TATA-AAAATATATA
1600907 TATAA
1 TATAA
1600912 TCATCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 12 0.67
15 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATAAAAATATATA
Found at i:1600978 original size:2 final size:2
Alignment explanation
Indices: 1600938--1600968 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1600928 CTTAAAAATA
*
1600938 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1600969 ATTTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1603632 original size:12 final size:12
Alignment explanation
Indices: 1603617--1603652 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1603607 TATTTAAACC
1603617 GGTATTGGGCCG
1 GGTATTGGGCCG
*
1603629 GGTATTGGGTCG
1 GGTATTGGGCCG
*
1603641 GGTATTAGGCCG
1 GGTATTGGGCCG
1603653 AGAATCGGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.47, T:0.28
Consensus pattern (12 bp):
GGTATTGGGCCG
Found at i:1603674 original size:2 final size:2
Alignment explanation
Indices: 1603667--1603791 Score: 120
Period size: 2 Copynumber: 66.0 Consensus size: 2
1603657 TCGGGCCGAG
* *
1603667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA T- TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
1603707 TA TA TA -A TA TA TT TT TT TA TT TA AA T- TA AA TT TA T- TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1603745 TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1603786 TA TA TA
1 TA TA TA
1603792 ATAATTATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
1 7 0.07
2 95 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1603844 original size:13 final size:13
Alignment explanation
Indices: 1603811--1603858 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
1603801 TTTAATATTT
*
1603811 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
1603823 ATC-GGGCGGGTA
1 ATCGGGGCGGGTA
1603835 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
1603848 ATCGGGGCGGG
1 ATCGGGGCGGG
1603859 GATTACCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 7 0.21
12 6 0.18
13 20 0.61
ACGTcount: A:0.12, C:0.17, G:0.54, T:0.17
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:1603845 original size:24 final size:26
Alignment explanation
Indices: 1603811--1603858 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
1603801 TTTAATATTT
*
1603811 ATCGGGTCGGGT-ATC-GGGCGGGTA
1 ATCGGGGCGGGTAATCGGGGCGGGTA
1603835 ATCGGGGCGGGTAATCGGGGCGGG
1 ATCGGGGCGGGTAATCGGGGCGGG
1603859 GATTACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 3 0.14
26 7 0.33
ACGTcount: A:0.12, C:0.17, G:0.54, T:0.17
Consensus pattern (26 bp):
ATCGGGGCGGGTAATCGGGGCGGGTA
Found at i:1610714 original size:24 final size:24
Alignment explanation
Indices: 1610687--1610735 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1610677 TTTCGATCTT
1610687 GCCCTCAGCTAAGTCGACGACCAC
1 GCCCTCAGCTAAGTCGACGACCAC
1610711 GCCCTCAGCTAAGTCGACGACCAC
1 GCCCTCAGCTAAGTCGACGACCAC
1610735 G
1 G
1610736 TCTAGCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.41, G:0.22, T:0.12
Consensus pattern (24 bp):
GCCCTCAGCTAAGTCGACGACCAC
Found at i:1612581 original size:7 final size:7
Alignment explanation
Indices: 1612564--1612596 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1612554 GTTAACTCTG
1612564 GTCAA-A
1 GTCAACA
*
1612570 GTCAATA
1 GTCAACA
1612577 GTCAACA
1 GTCAACA
1612584 GTCAACA
1 GTCAACA
1612591 GTCAAC
1 GTCAAC
1612597 TCTGGTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.18
Consensus pattern (7 bp):
GTCAACA
Found at i:1612598 original size:37 final size:36
Alignment explanation
Indices: 1612541--1612611 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
1612531 GACTTTTTGG
* *
1612541 GTCAAAGTCAACGGTTAACTCTGGTCAAAGTCAATA
1 GTCAAAGTCAACAGTCAACTCTGGTCAAAGTCAATA
1612577 GTCAACAGTCAACAGTCAACTCTGGTCAAAGTCAA
1 GTCAA-AGTCAACAGTCAACTCTGGTCAAAGTCAA
1612612 CGGGTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (36 bp):
GTCAAAGTCAACAGTCAACTCTGGTCAAAGTCAATA
Found at i:1614527 original size:23 final size:23
Alignment explanation
Indices: 1614497--1614545 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
1614487 TTCCTATTCA
1614497 TAAGGTTGGACTTGTAACTTAAT
1 TAAGGTTGGACTTGTAACTTAAT
*
1614520 TAAGGTTGGACTTGTGACTTAAT
1 TAAGGTTGGACTTGTAACTTAAT
1614543 TAA
1 TAA
1614546 AGAAAGATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (23 bp):
TAAGGTTGGACTTGTAACTTAAT
Found at i:1617106 original size:182 final size:182
Alignment explanation
Indices: 1616672--1617335 Score: 924
Period size: 182 Copynumber: 3.7 Consensus size: 182
1616662 AATACAAATA
* * ***
1616672 AAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGCCC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGAAA
* * * ** * *
1616737 AAACTGGTAAAGCGATATTGGATATGTTGAAAGTGTCGATACTTTAATATAAGCATCGACA-TTT
66 AAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
* * *
1616801 TGGAATTTAAAAGAGAAGCATTAATAGCACCTATAAAGTGTCGATACTTTAT
131 TGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
1616853 AAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGATAAAACCGGTCTCAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTC-AAAATGAA
1616918 AAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTT
65 AAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTT
* *
1616983 TTGGAATTTAAAAGACAAGAAGTAATAACGCCTATAAAGTGTCGATACTTTAT
130 TTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * * * *
1617036 AAAAATGTATCGATCCATAACAATATAACATGTAAAAATATAATAAAATCGATCTCAAAATGAAA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGAAA
* ** * * *
1617101 AAACCGATAAATCGCTACTGTATATGTTGAAAGTGTCAATACTTTATTATAAGTATCGACACTTT
66 AAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
* * *
1617166 TAGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTATCGATGCTTTAT
131 TGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
1617218 AAAAATGTATCGA-CACTTAACAATATAATAGGTAAAAATATGACAAACCCGGTCTCAAAATGAA
1 AAAAATGTATCGATC-CATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGAA
*
1617282 AAAACCGGTAAA-ACGCTACCAGATATGTTGAAAGTGTCGATACTTTA--ATAAGTA
65 AAAACCGGTAAAGA-GCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTA
1617336 CGCGTAATAA
Statistics
Matches: 430, Mismatches: 49, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
180 7 0.02
181 54 0.13
182 268 0.62
183 101 0.23
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGAAA
AAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
TGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:1619341 original size:22 final size:23
Alignment explanation
Indices: 1619291--1619345 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1619281 TACGTTTTTG
*
1619291 TTTT-TTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAGAA
*
1619313 TAGTTATTATATAAAATGATA-AA
1 T-TTTATTATATAAAATGATAGAA
1619336 TTTTATTATA
1 TTTTATTATA
1619346 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 4 0.14
24 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:1620347 original size:200 final size:200
Alignment explanation
Indices: 1619994--1620784 Score: 1237
Period size: 200 Copynumber: 4.0 Consensus size: 200
1619984 TGTAGAGCAA
1619994 AATGCCCAAA-AGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAAC
1 AATGCCCAAAGA-GGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAAC
* * *
1620058 ATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTT
65 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCGGTT
* * * * * * *
1620123 TTATGAGAGAATAGGTCTACATAATGTATCGACA-TTTGTGAAATTTGTGTCGATATTTTTTGTC
130 TAATTAGAAAAGAGGTCAACATAATGTATCGACACTTT-TTAAATTTGTGTCGATACTTTTTGTC
*
1620187 CAGAATG
194 CAGAATC
* *
1620194 AATGCCCAAA-AGGGTGCACGCATAATGTGTCGATACATTTATAAAAAATATCGATCCCAAAAAC
1 AATGCCCAAAGA-GGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAAC
* * * * *
1620258 ATCGAAACCGATAATTATAATGTAGTAAGTAAATTTCCAATGTAACCGATATAAATATATCGATT
65 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCGGTT
* * * *
1620323 TAATTAGAAAAGCGGTCAACATAATATATCAACACTTTTTAAATTTGTGTCGATACTTTTTATCC
130 TAATTAGAAAAGAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCC
1620388 AGAATC
195 AGAATC
* * *
1620394 AATGCCCCACGAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCATAAACA
1 AATGCCCAAAGAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACA
*
1620459 TCGAAACCGATAATTATAATGTAATAGGTAAATTTCTAATGTAACCGGTATAAATATACCGGTTT
66 TCGAAACCGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCGGTTT
*
1620524 AATTAGAAAAGAGATCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCA
131 AATTAGAAAAGAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCA
1620589 GAATC
196 GAATC
* *
1620594 AATGGCCAATGAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACA
1 AATGCCCAAAGAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACA
* *
1620659 TCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGCTATAAATATACCGGTTT
66 TCGAAACCGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCGGTTT
*
1620724 AATTAGAAAAGCGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACCTTTTT
131 AATTAGAAAAGAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATA-CTTTTT
1620785 AAATTTCGCG
Statistics
Matches: 541, Mismatches: 47, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
200 531 0.98
201 10 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (200 bp):
AATGCCCAAAGAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACA
TCGAAACCGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCGGTTT
AATTAGAAAAGAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCA
GAATC
Found at i:1625117 original size:200 final size:200
Alignment explanation
Indices: 1624772--1625310 Score: 712
Period size: 200 Copynumber: 2.7 Consensus size: 200
1624762 TATCGACACT
* * *
1624772 TTTTGTCCAGAATGAATGCCAAACGGGGTGCACGCATAAAATGTTGATACATTTATTAAAAGTAT
1 TTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTAT
* *
1624837 CGATTCCAAAAACATCGAAA-CATATAATTATAATGTAATAGGTAAATTTCCAATGTAACCCGTA
66 CGATCCCAAAAACATCGAAACCA-ATAATTATAATGTAATAGGTAAATTTACAATGTAACCCGTA
* *
1624901 GAAATATACTGGTTTTATGAGAGAATAGATCAACATAATGTATCGACACTTTTTAA-ATTTGTGT
130 GAAATATACCGGTTTTATGAGAAAATAGATCAACATAATGTATCGACACTTTTTAAGA-TTGTGT
1624965 CAATACA
194 CAATACA
* * * *
1624972 TTTTGTCCAAAATGAATGCCAAACGCGATGCACGCATAAAGTGTCGATACATTTATTAACAGTAT
1 TTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTAT
* * *
1625037 CGATCCCAAAAACATCGAAACCAATAATTACAATGTAATAGGTAAATTTAAAATGT-ACCCATTA
66 CGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCC-GTA
* * * *
1625101 GAAATATACCGGTTTTATGAGAAAATAGGTCTATATAATTTATCGACACTTTTTAAGATTGTGTC
130 GAAATATACCGGTTTTATGAGAAAATAGATCAACATAATGTATCGACACTTTTTAAGATTGTGTC
* *
1625166 GATATA
195 AATACA
* * * *
1625172 TTTT-TCTAGAATGAAAGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA--AAATTGTA
1 TTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA-AGTA
* ** * * *
1625234 TCGATCCCCGAAAACATCGAAACTGATAATTATAATGTAATATGTAAATTTACAATGTTACCGGT
65 TCGAT-CCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCCGT
*
1625299 ATAAATATACCG
129 AGAAATATACCG
1625311 ATTTAGTTAG
Statistics
Matches: 297, Mismatches: 36, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
197 2 0.01
198 8 0.03
199 106 0.36
200 178 0.60
201 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (200 bp):
TTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTAT
CGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCCGTAG
AAATATACCGGTTTTATGAGAAAATAGATCAACATAATGTATCGACACTTTTTAAGATTGTGTCA
ATACA
Done.